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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGTACAGACCACAGAGGGACACCAGAATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttccttttacaatccaaacgcccatactacatcaaatgtatacctgtatgaaaatttgattggattctcaatcatttgctttctctttaagtgcg...

Basic information

species Vitis vinifera
transcript Vv18s0001g03150.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g03150.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA13G03160.1 (Glycine max), 5'ss of exon 2
GTAGTACAGACCACAGAGGGACACCAGAATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagt--tcc----ttttacaatccaaacgcccatactacatcaaatgtatacctgtatgaaaatttgattggattctcaatcatttgctttctctttaagtgcg
|   ||| ||||||||||| || || || | ||| ||||||||||| ||  ||||||||||||||||||| || || || |||  |||    |||||  ||      | ||  | ||  |||  |  ||   |   ||| ||   | |     | |||   ||||  ||  | |  ||     
GCTCTACTGACCACAGAGGAACCCCTGAGTTCCCTGGAAGAACAGTGACCCTGGAGCCTGCTGAAGGAGAAATATGTgtaagtattcccaagttttattatttttcagaccccattat-tcaggttgatttatcagtgataacaagttccatatttcatctatttaattgttatgaaa-----
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|27579621|gb|CB002316.1|CB002316
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|110371933|gb|EC936069.1|EC936069
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|71873170|gb|DT022225.1|DT022225
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|110709129|gb|EE084317.1|EE084317
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|110382676|gb|EC946993.1|EC946993
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|27580878|gb|CB003573.1|CB003573
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|30321569|gb|CD004831.1|CD004831
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|27580470|gb|CB003165.1|CB003165
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
EST: gi|27581639|gb|CB004334.1|CB004334
EST:     AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGC                         TGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA
genomic: AATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttcct ... aaggttatagTGGGGAGTTGCCTACAAGGTTTCCAAGGAGGAAGATGAACAGATTGCATTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAGTACAGACCACAGAGGGACACCAGAATACCCAGGAAGAACAGTTACATTGGAGCCTGCTGAAGGAGAGATCTGCgtgagttccttttacaatccaaacgcccatactacatcaaatgtatacctgtatgaaaatttgattggattctcaatcatttgctttctctttaagtgcg

- - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgaaaa